HEADER HYDROLASE 04-DEC-16 5MKG TITLE PA3825-EAL CA-CDG STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIGUANYLATE PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DIGUANYLATE PHOSPHODIESTERASE; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: AO964_02925; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: LEMO21; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 10 ORGANISM_TAXID: 287; SOURCE 11 GENE: AO964_02925; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_VARIANT: LEMO21 KEYWDS EAL, PHOSPHODIESTERASE, BIOFILM FORMATION, P AERUGINOSA, PA3825, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.HORRELL,D.BELLINI,R.STRANGE,A.WAGNER,M.WALSH REVDAT 5 22-MAR-23 5MKG 1 SPRSDE HETSYN LINK REVDAT 4 03-JUL-19 5MKG 1 SOURCE REVDAT 3 08-MAY-19 5MKG 1 SPRSDE LINK REVDAT 2 01-MAR-17 5MKG 1 JRNL REVDAT 1 14-DEC-16 5MKG 0 JRNL AUTH D.BELLINI,S.HORRELL,A.HUTCHIN,C.W.PHIPPEN,R.W.STRANGE,Y.CAI, JRNL AUTH 2 A.WAGNER,J.S.WEBB,I.TEWS,M.A.WALSH JRNL TITL DIMERISATION INDUCED FORMATION OF THE ACTIVE SITE AND THE JRNL TITL 2 IDENTIFICATION OF THREE METAL SITES IN JRNL TITL 3 EAL-PHOSPHODIESTERASES. JRNL REF SCI REP V. 7 42166 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 28186120 JRNL DOI 10.1038/SREP42166 REMARK 2 REMARK 2 RESOLUTION. 2.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 19345 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1060 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1420 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3891 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 99 REMARK 3 SOLVENT ATOMS : 76 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.42000 REMARK 3 B22 (A**2) : 1.81000 REMARK 3 B33 (A**2) : 1.77000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.99000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.683 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.327 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.270 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.206 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.923 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4074 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3807 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5545 ; 1.373 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8804 ; 0.933 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 493 ; 6.109 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 184 ;36.906 ;23.315 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 675 ;13.922 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;13.928 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 624 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4467 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 833 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 6 259 B 6 259 13986 0.100 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5MKG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1200002583. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAY-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20405 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.440 REMARK 200 RESOLUTION RANGE LOW (A) : 51.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.84100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6-11% ISO-PROPANOL, 0.1 M MES PH 6.5, REMARK 280 0.1 M SODIUM ACETATE PH 4.5 AND 0.2 M CALCIUM ACETATE, PH 5.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 56.11500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.70000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 56.11500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.70000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 165 REMARK 465 HIS A 166 REMARK 465 SER A 167 REMARK 465 SER A 168 REMARK 465 LEU A 169 REMARK 465 ALA A 170 REMARK 465 TYR A 171 REMARK 465 LEU A 172 REMARK 465 GLY B 165 REMARK 465 HIS B 166 REMARK 465 SER B 167 REMARK 465 SER B 168 REMARK 465 LEU B 169 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 57 -22.68 -141.01 REMARK 500 GLU A 106 -150.36 72.46 REMARK 500 SER A 139 116.78 69.38 REMARK 500 GLU A 141 87.48 167.00 REMARK 500 VAL A 142 -99.14 -164.85 REMARK 500 THR A 143 32.47 -77.75 REMARK 500 ASP A 144 37.77 -93.30 REMARK 500 GLN A 176 18.91 90.60 REMARK 500 ASP A 193 102.17 -170.45 REMARK 500 LEU A 247 -36.72 -39.68 REMARK 500 ASN B 18 65.51 17.65 REMARK 500 PHE B 57 -23.71 -140.36 REMARK 500 HIS B 105 42.95 -100.95 REMARK 500 LEU B 109 -40.80 -22.81 REMARK 500 TYR B 171 -63.19 39.36 REMARK 500 LEU B 172 -54.77 -8.48 REMARK 500 ASP B 193 101.32 -174.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 39 OE2 REMARK 620 2 ASN A 98 OD1 83.6 REMARK 620 3 GLU A 130 OE1 80.8 88.5 REMARK 620 4 ASP A 160 OD1 149.2 124.7 87.5 REMARK 620 5 ASP A 160 OD2 160.6 81.7 86.2 43.0 REMARK 620 6 C2E A 304 O2P 84.8 84.2 164.5 107.9 106.2 REMARK 620 7 HOH A 405 O 76.7 160.2 90.1 74.9 117.9 92.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 135 OE2 REMARK 620 2 HOH A 426 O 109.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 161 OD1 REMARK 620 2 ASP A 183 OD1 70.5 REMARK 620 3 GLU A 217 OE1 102.6 131.3 REMARK 620 4 C2E A 304 O1P 68.5 130.9 83.6 REMARK 620 5 HOH A 421 O 84.5 91.5 136.8 59.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 39 OE2 REMARK 620 2 ASN B 98 OD1 84.1 REMARK 620 3 GLU B 130 OE1 81.1 89.4 REMARK 620 4 ASP B 160 OD2 164.0 83.9 88.2 REMARK 620 5 C2E B 304 O21 92.0 90.3 173.1 98.7 REMARK 620 6 HOH B 408 O 77.0 160.9 85.1 114.1 93.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE B 99 O REMARK 620 2 GLU B 135 OE2 80.0 REMARK 620 3 HOH B 423 O 93.9 127.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 160 OD1 REMARK 620 2 ASP B 161 OD1 83.6 REMARK 620 3 GLU B 217 OE1 111.4 91.2 REMARK 620 4 GLU B 217 OE2 72.6 114.4 48.3 REMARK 620 5 C2E B 304 O11 106.5 76.4 138.4 168.7 REMARK 620 6 C2E B 304 O5A 135.5 117.8 106.8 121.9 50.7 REMARK 620 7 HOH B 408 O 80.1 162.7 89.5 55.0 113.8 78.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 234 OD1 REMARK 620 2 ASP B 234 OD2 45.7 REMARK 620 3 HOH B 410 O 125.3 80.1 REMARK 620 4 HOH B 424 O 110.6 107.4 74.2 REMARK 620 5 HOH B 429 O 75.5 120.6 159.2 99.0 REMARK 620 6 HOH B 431 O 125.7 106.3 68.2 123.2 101.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C2E A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue C2E B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 305 DBREF1 5MKG A 5 260 UNP A0A140SMD7_PSEAI DBREF2 5MKG A A0A140SMD7 259 514 DBREF1 5MKG B 6 259 UNP A0A140SMD7_PSEAI DBREF2 5MKG B A0A140SMD7 260 513 SEQRES 1 A 256 ALA SER PRO SER SER GLU LEU ARG ARG ALA LEU GLU ALA SEQRES 2 A 256 ASN GLU PHE ILE PRO TYR TYR GLN PRO LEU SER PRO GLY SEQRES 3 A 256 GLN GLY GLY ARG TRP ILE GLY VAL GLU VAL LEU MET ARG SEQRES 4 A 256 TRP ARG HIS PRO ARG GLU GLY LEU ILE ARG PRO ASP LEU SEQRES 5 A 256 PHE ILE PRO PHE ALA GLU ARG SER GLY LEU ILE VAL PRO SEQRES 6 A 256 MET THR ARG ALA LEU MET ARG GLN VAL ALA GLU ASP LEU SEQRES 7 A 256 GLY GLY HIS ALA GLY LYS LEU GLU PRO GLY PHE HIS ILE SEQRES 8 A 256 GLY PHE ASN ILE SER ALA THR HIS CYS HIS GLU LEU ALA SEQRES 9 A 256 LEU VAL ASP ASP CYS ARG GLU LEU LEU ALA ALA PHE PRO SEQRES 10 A 256 PRO GLY HIS ILE THR LEU VAL LEU GLU LEU THR GLU ARG SEQRES 11 A 256 GLU LEU ILE GLU SER SER GLU VAL THR ASP ARG LEU PHE SEQRES 12 A 256 ASP GLU LEU HIS ALA LEU GLY VAL LYS ILE ALA ILE ASP SEQRES 13 A 256 ASP PHE GLY THR GLY HIS SER SER LEU ALA TYR LEU ARG SEQRES 14 A 256 LYS PHE GLN VAL ASP CYS LEU LYS ILE ASP GLN SER PHE SEQRES 15 A 256 VAL ALA ARG ILE GLY ILE ASP THR LEU SER GLY HIS ILE SEQRES 16 A 256 LEU ASP SER ILE VAL GLU LEU SER ALA LYS LEU ASP LEU SEQRES 17 A 256 ASP ILE VAL ALA GLU GLY VAL GLU THR PRO GLU GLN ARG SEQRES 18 A 256 ASP TYR LEU ALA ALA ARG GLY VAL ASP TYR LEU GLN GLY SEQRES 19 A 256 TYR LEU ILE GLY ARG PRO MET PRO LEU GLU SER LEU LEU SEQRES 20 A 256 SER SER LEU THR VAL GLN GLU GLY GLN SEQRES 1 B 254 SER PRO SER SER GLU LEU ARG ARG ALA LEU GLU ALA ASN SEQRES 2 B 254 GLU PHE ILE PRO TYR TYR GLN PRO LEU SER PRO GLY GLN SEQRES 3 B 254 GLY GLY ARG TRP ILE GLY VAL GLU VAL LEU MET ARG TRP SEQRES 4 B 254 ARG HIS PRO ARG GLU GLY LEU ILE ARG PRO ASP LEU PHE SEQRES 5 B 254 ILE PRO PHE ALA GLU ARG SER GLY LEU ILE VAL PRO MET SEQRES 6 B 254 THR ARG ALA LEU MET ARG GLN VAL ALA GLU ASP LEU GLY SEQRES 7 B 254 GLY HIS ALA GLY LYS LEU GLU PRO GLY PHE HIS ILE GLY SEQRES 8 B 254 PHE ASN ILE SER ALA THR HIS CYS HIS GLU LEU ALA LEU SEQRES 9 B 254 VAL ASP ASP CYS ARG GLU LEU LEU ALA ALA PHE PRO PRO SEQRES 10 B 254 GLY HIS ILE THR LEU VAL LEU GLU LEU THR GLU ARG GLU SEQRES 11 B 254 LEU ILE GLU SER SER GLU VAL THR ASP ARG LEU PHE ASP SEQRES 12 B 254 GLU LEU HIS ALA LEU GLY VAL LYS ILE ALA ILE ASP ASP SEQRES 13 B 254 PHE GLY THR GLY HIS SER SER LEU ALA TYR LEU ARG LYS SEQRES 14 B 254 PHE GLN VAL ASP CYS LEU LYS ILE ASP GLN SER PHE VAL SEQRES 15 B 254 ALA ARG ILE GLY ILE ASP THR LEU SER GLY HIS ILE LEU SEQRES 16 B 254 ASP SER ILE VAL GLU LEU SER ALA LYS LEU ASP LEU ASP SEQRES 17 B 254 ILE VAL ALA GLU GLY VAL GLU THR PRO GLU GLN ARG ASP SEQRES 18 B 254 TYR LEU ALA ALA ARG GLY VAL ASP TYR LEU GLN GLY TYR SEQRES 19 B 254 LEU ILE GLY ARG PRO MET PRO LEU GLU SER LEU LEU SER SEQRES 20 B 254 SER LEU THR VAL GLN GLU GLY HET CA A 301 1 HET CA A 302 1 HET CA A 303 1 HET C2E A 304 46 HET CA B 301 1 HET CA B 302 1 HET CA B 303 1 HET C2E B 304 46 HET CA B 305 1 HETNAM CA CALCIUM ION HETNAM C2E 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10AS,12S,14AR)-3,5,10, HETNAM 2 C2E 12-TETRAHYDROXY-5,12-DIOXIDOOCTAHYDRO-2H,7H-DIFURO[3, HETNAM 3 C2E 2-D:3',2'-J][1,3,7,9,2, HETNAM 4 C2E 8]TETRAOXADIPHOSPHACYCLODODECINE-2,9-DIYL]BIS(2-AMINO- HETNAM 5 C2E 1,9-DIHYDRO-6H-PURIN-6-ONE) HETSYN C2E C-DI-GMP; CYCLIC DIGUANOSINE MONOPHOSPHATE FORMUL 3 CA 7(CA 2+) FORMUL 6 C2E 2(C20 H24 N10 O14 P2) FORMUL 12 HOH *76(H2 O) HELIX 1 AA1 SER A 6 ALA A 17 1 12 HELIX 2 AA2 ARG A 53 LEU A 56 5 4 HELIX 3 AA3 PHE A 57 GLY A 65 1 9 HELIX 4 AA4 LEU A 66 GLY A 84 1 19 HELIX 5 AA5 HIS A 85 LEU A 89 5 5 HELIX 6 AA6 ALA A 101 HIS A 105 5 5 HELIX 7 AA7 LEU A 107 ALA A 119 1 13 HELIX 8 AA8 ASP A 144 LEU A 153 1 10 HELIX 9 AA9 ASP A 183 ARG A 189 1 7 HELIX 10 AB1 ASP A 193 LEU A 210 1 18 HELIX 11 AB2 THR A 221 ALA A 230 1 10 HELIX 12 AB3 PRO A 246 GLY A 259 1 14 HELIX 13 AB4 PRO B 7 ALA B 17 1 11 HELIX 14 AB5 ARG B 53 LEU B 56 5 4 HELIX 15 AB6 PHE B 57 GLY B 65 1 9 HELIX 16 AB7 LEU B 66 GLY B 84 1 19 HELIX 17 AB8 HIS B 85 LEU B 89 5 5 HELIX 18 AB9 SER B 100 HIS B 105 1 6 HELIX 19 AC1 ALA B 108 ALA B 119 1 12 HELIX 20 AC2 THR B 132 ILE B 137 1 6 HELIX 21 AC3 SER B 140 LEU B 153 1 14 HELIX 22 AC4 ASP B 183 ARG B 189 1 7 HELIX 23 AC5 ASP B 193 LEU B 210 1 18 HELIX 24 AC6 THR B 221 ALA B 230 1 10 HELIX 25 AC7 PRO B 246 GLY B 259 1 14 SHEET 1 AA110 GLY A 50 ILE A 52 0 SHEET 2 AA110 GLY A 37 HIS A 46 -1 N TRP A 44 O ILE A 52 SHEET 3 AA110 PHE A 93 ASN A 98 1 O GLY A 96 N VAL A 38 SHEET 4 AA110 ILE A 125 THR A 132 1 O THR A 126 N ILE A 95 SHEET 5 AA110 LYS A 156 PHE A 162 1 O ASP A 160 N LEU A 131 SHEET 6 AA110 CYS A 179 ILE A 182 1 O LYS A 181 N ILE A 159 SHEET 7 AA110 ASP A 213 ALA A 216 1 O VAL A 215 N ILE A 182 SHEET 8 AA110 TYR A 235 LEU A 236 1 O TYR A 235 N ALA A 216 SHEET 9 AA110 PHE A 20 PRO A 29 -1 N SER A 28 O LEU A 236 SHEET 10 AA110 GLY A 37 HIS A 46 -1 O LEU A 41 N TYR A 23 SHEET 1 AA210 GLY B 50 ILE B 52 0 SHEET 2 AA210 GLY B 37 HIS B 46 -1 N TRP B 44 O ILE B 52 SHEET 3 AA210 PHE B 93 ASN B 98 1 O GLY B 96 N VAL B 38 SHEET 4 AA210 ILE B 125 LEU B 131 1 O THR B 126 N ILE B 95 SHEET 5 AA210 LYS B 156 PHE B 162 1 O ASP B 160 N LEU B 131 SHEET 6 AA210 CYS B 179 ILE B 182 1 O LYS B 181 N ILE B 159 SHEET 7 AA210 ASP B 213 ALA B 216 1 O VAL B 215 N ILE B 182 SHEET 8 AA210 TYR B 235 LEU B 236 1 O TYR B 235 N ALA B 216 SHEET 9 AA210 PHE B 20 PRO B 29 -1 N SER B 28 O LEU B 236 SHEET 10 AA210 GLY B 37 HIS B 46 -1 O LEU B 41 N TYR B 23 LINK OE2 GLU A 39 CA CA A 303 1555 1555 2.29 LINK OD1 ASN A 98 CA CA A 303 1555 1555 2.37 LINK OE1 GLU A 130 CA CA A 303 1555 1555 2.36 LINK OE2 GLU A 135 CA CA A 301 1555 1555 2.91 LINK OD1 ASP A 160 CA CA A 303 1555 1555 3.20 LINK OD2 ASP A 160 CA CA A 303 1555 1555 2.34 LINK OD1 ASP A 161 CA CA A 302 1555 1555 2.21 LINK OD1 ASP A 183 CA CA A 302 1555 1555 2.92 LINK OE1 GLU A 217 CA CA A 302 1555 1555 2.81 LINK CA CA A 301 O HOH A 426 1555 1555 2.83 LINK CA CA A 302 O1P C2E A 304 1555 1555 2.81 LINK CA CA A 302 O HOH A 421 1555 1555 2.82 LINK CA CA A 303 O2P C2E A 304 1555 1555 2.23 LINK CA CA A 303 O HOH A 405 1555 1555 2.51 LINK OE2 GLU B 39 CA CA B 302 1555 1555 2.31 LINK OD1 ASN B 98 CA CA B 302 1555 1555 2.35 LINK O ILE B 99 CA CA B 301 1555 1555 3.07 LINK OE1 GLU B 130 CA CA B 302 1555 1555 2.33 LINK OE2 GLU B 135 CA CA B 301 1555 1555 3.01 LINK OD2 ASP B 160 CA CA B 302 1555 1555 2.27 LINK OD1 ASP B 160 CA CA B 303 1555 1555 2.40 LINK OD1 ASP B 161 CA CA B 303 1555 1555 2.39 LINK OE1 GLU B 217 CA CA B 303 1555 1555 2.38 LINK OE2 GLU B 217 CA CA B 303 1555 1555 2.88 LINK OD1 ASP B 234 CA CA B 305 1555 1555 2.89 LINK OD2 ASP B 234 CA CA B 305 1555 1555 2.78 LINK CA CA B 301 O HOH B 423 1555 1555 2.59 LINK CA CA B 302 O21 C2E B 304 1555 1555 2.17 LINK CA CA B 302 O HOH B 408 1555 1555 2.45 LINK CA CA B 303 O11 C2E B 304 1555 1555 2.33 LINK CA CA B 303 O5A C2E B 304 1555 1555 3.08 LINK CA CA B 303 O HOH B 408 1555 1555 2.82 LINK CA CA B 305 O HOH B 410 1555 1555 2.50 LINK CA CA B 305 O HOH B 424 1555 1555 2.92 LINK CA CA B 305 O HOH B 429 1555 1555 2.58 LINK CA CA B 305 O HOH B 431 1555 1555 2.76 CISPEP 1 PHE A 175 GLN A 176 0 13.59 SITE 1 AC1 3 ILE A 99 GLU A 135 HOH A 426 SITE 1 AC2 5 ASP A 161 ASP A 183 GLU A 217 C2E A 304 SITE 2 AC2 5 HOH A 421 SITE 1 AC3 6 GLU A 39 ASN A 98 GLU A 130 ASP A 160 SITE 2 AC3 6 C2E A 304 HOH A 405 SITE 1 AC4 24 GLN A 25 GLU A 39 MET A 42 ARG A 43 SITE 2 AC4 24 ARG A 53 PRO A 54 ASP A 55 LEU A 74 SITE 3 AC4 24 ASN A 98 SER A 100 ASP A 160 ASP A 161 SITE 4 AC4 24 GLN A 184 GLY A 218 GLU A 220 GLY A 238 SITE 5 AC4 24 TYR A 239 CA A 302 CA A 303 HOH A 404 SITE 6 AC4 24 HOH A 408 HOH A 414 HOH A 421 ARG B 243 SITE 1 AC5 3 ILE B 99 GLU B 135 HOH B 423 SITE 1 AC6 7 GLU B 39 ASN B 98 GLU B 130 ASP B 160 SITE 2 AC6 7 CA B 303 C2E B 304 HOH B 408 SITE 1 AC7 6 ASP B 160 ASP B 161 GLU B 217 CA B 302 SITE 2 AC7 6 C2E B 304 HOH B 408 SITE 1 AC8 23 ARG A 243 GLN B 25 GLU B 39 MET B 42 SITE 2 AC8 23 ARG B 43 ARG B 53 PRO B 54 ASP B 55 SITE 3 AC8 23 LEU B 74 ASN B 98 SER B 100 ASP B 160 SITE 4 AC8 23 ASP B 161 GLN B 184 GLY B 218 GLU B 220 SITE 5 AC8 23 GLY B 238 TYR B 239 PRO B 244 CA B 302 SITE 6 AC8 23 CA B 303 HOH B 403 HOH B 405 SITE 1 AC9 5 ASP B 234 HOH B 410 HOH B 424 HOH B 429 SITE 2 AC9 5 HOH B 431 CRYST1 112.230 59.400 92.780 90.00 115.03 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008910 0.000000 0.004161 0.00000 SCALE2 0.000000 0.016835 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011895 0.00000